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Home work assignment (due 4/6/2014)

Home work assignment (due 4/6/2014). Write a script that takes all phylip formated aligned multiple sequence files present in a directory, and performes a bootstrap analyses using maximum parsimony .

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Home work assignment (due 4/6/2014)

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  1. Home work assignment (due 4/6/2014) • Write a script that takes all phylipformated aligned multiple sequence files present in a directory, and performesa bootstrap analyses using maximum parsimony. • Files you might want to use are A.fa, B.fa, alpha.fa, beta.fafrom last week’s assignment, and atp_all.phy. BUT you first have to align them and convert them to phylipformat* AND you should replace gaps with “?” • (In the end you would be able to answer the question • “does the resolution increase if a more related subgroup is • analyzed independent from an outgroup?) • clustalw2 is one program frequently used to convert formats • system("clustalw -infile=$file.fa -align -output=PHYLIP");

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